Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 291 of 425
Found at i:90242647 original size:29 final size:29
Alignment explanation
Indices: 90242619--90242721 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
90242609 CCTCCGAGCT
** * * *
90242619 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
90242648 TGCACACTTAGTTCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
90242677 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
90242706 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90242722 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:90246278 original size:5 final size:5
Alignment explanation
Indices: 90246270--90246294 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90246260 GAAATTTTGC
90246270 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
90246295 TTTAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:90246402 original size:14 final size:14
Alignment explanation
Indices: 90246383--90246417 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
90246373 TGATTGTTAA
90246383 ATTAAATTTAAAAT
1 ATTAAATTTAAAAT
90246397 ATTAAATTTAAAAT
1 ATTAAATTTAAAAT
90246411 ATTAAAT
1 ATTAAAT
90246418 CAAACAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTAAATTTAAAAT
Found at i:90257227 original size:2 final size:2
Alignment explanation
Indices: 90257220--90257250 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
90257210 TTTTAACTAC
90257220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90257251 CCACAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90264609 original size:2 final size:2
Alignment explanation
Indices: 90264602--90264634 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
90264592 TTTAACTTAC
90264602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90264635 CCACAAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90266573 original size:11 final size:10
Alignment explanation
Indices: 90266534--90266569 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
90266524 GTTTATAAAC
90266534 ACTTTTATAA
1 ACTTTTATAA
90266544 ACTTTTATAA
1 ACTTTTATAA
90266554 ACTTTTATAA
1 ACTTTTATAA
90266564 ACTTTT
1 ACTTTT
90266570 TATATTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (10 bp):
ACTTTTATAA
Found at i:90268485 original size:18 final size:20
Alignment explanation
Indices: 90268449--90268495 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
90268439 AGTTGTAAGT
90268449 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
90268469 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
90268488 ATGATATA
1 AT-ATATA
90268496 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:90268973 original size:50 final size:50
Alignment explanation
Indices: 90268901--90269074 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 50
90268891 AGGTCACGTA
* *
90268901 TGTAGTACTATGTGCAGGCTACTACATGTACCAGATTGTTAGGTTGCATG
1 TGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTTGCATG
* * * * *
90268951 TGTAGTACTAAGTACAATCTACTACGTGTATCTA-ATGGTTAGG-T-CATGTG
1 TGTAGTACTAAGTGCAAGCTACTACATGTA-CCAGATTGTTAGGTTGCA--TG
* * *
90269001 TGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGATCGCATG
1 TGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTTGCATG
*
90269051 TGCAGTA-TGAAGTGCAAGCTACTA
1 TGTAGTACT-AAGTGCAAGCTACTA
90269075 TGCGTACCAG
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
48 2 0.02
49 4 0.04
50 90 0.90
51 2 0.02
52 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAAGCTACTACATGTACCAGATTGTTAGGTTGCATG
Found at i:90269008 original size:100 final size:100
Alignment explanation
Indices: 90268889--90269074 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 100
90268879 TAAAATGGTT
* * * *
90268889 TTAGGTCACGTATGTAGTACTATGTGCAGGCTACTACATGTACCAGATTGTTAGGTTGCATGTGT
1 TTAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGATCGCATGTGC
*
90268954 AGTACT-AAGTACAATCTACTACGTGTATCTAATGG
66 AGTA-TGAAGTACAAGCTACTACGTGTATCTAATGG
* *
90268989 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGATCGCATGTGC
1 TTAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGATCGCATGTGC
*
90269054 AGTATGAAGTGCAAGCTACTA
66 AGTATGAAGTACAAGCTACTA
90269075 TGCGTACCAG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 1 0.01
100 76 0.99
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (100 bp):
TTAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGATCGCATGTGC
AGTATGAAGTACAAGCTACTACGTGTATCTAATGG
Found at i:90272593 original size:15 final size:16
Alignment explanation
Indices: 90272560--90272603 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
90272550 TATGATATTG
*
90272560 TATCTTAGATTTC-CT
1 TATCTTGGATTTCTCT
90272575 TATCTTGGATTTCTC-
1 TATCTTGGATTTCTCT
*
90272590 TATCTTGGACTTCT
1 TATCTTGGATTTCT
90272604 TAATCCTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.52
Consensus pattern (16 bp):
TATCTTGGATTTCTCT
Found at i:90275200 original size:18 final size:20
Alignment explanation
Indices: 90275164--90275210 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
90275154 AGTTGTAAGT
90275164 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
90275184 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
90275203 ATGATATA
1 AT-ATATA
90275211 ACAGGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:90275735 original size:51 final size:50
Alignment explanation
Indices: 90275608--90275794 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 50
90275598 TAAAATGGTT
* * *
90275608 TTAGGTCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGATTG
1 TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG
* * * * *
90275658 TTAGATCGCATGTGTAGTA-TGAAGTGCAGGCTACTA-TTCGTACCCGATAG
1 TTAGATCACGTGTGTAGTACT-AAGTGCAAGCTACTACGT-GTACCAGATAG
* * *
90275708 CTTCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACATGCATA-CA-ATGG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTG--TACCAGATAG
* * * *
90275759 TTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTA
1 TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTA
90275795 TGCGTACTAG
Statistics
Matches: 110, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
49 2 0.02
50 69 0.63
51 34 0.31
52 3 0.03
53 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG
Found at i:90275740 original size:101 final size:100
Alignment explanation
Indices: 90275613--90275801 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 100
90275603 TGGTTTTAGG
* * * *
90275613 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTG-TACCAGATTGTTAGATCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGATA-CA-ATGGTTAGATCACATGTGTAGTA
*
90275677 -TGAAGTGCAGGCTACTATTCGTACCCGATAGCTTCGA
64 CT-AAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
*
90275714 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGCATACAATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATG-ATACAATGGTTAGATCACATGTGTAGTAC
*
90275779 TAAGTGTAGGCTACTATGCGTAC
65 TAAGTGCAGGCTACTATGCGTAC
90275802 TAGAGAGCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
101 73 0.94
102 3 0.04
103 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGATACAATGGTTAGATCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
Found at i:90280623 original size:6 final size:6
Alignment explanation
Indices: 90280612--90280691 Score: 58
Period size: 6 Copynumber: 13.2 Consensus size: 6
90280602 TATCAAAACT
* * *
90280612 AGAATC AGAATC AGAATC AGAATT AG-GTGAC A-AATT AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
90280660 AGTATC AGGTAA-C AGAATC AAAATC AGAATC A
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A
90280692 ATATCAGGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
5 4 0.07
6 47 0.82
7 5 0.09
8 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:90280688 original size:31 final size:31
Alignment explanation
Indices: 90280612--90280721 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
90280602 TATCAAAACT
* * * *
90280612 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
90280643 A-AATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
90280673 AGAATCAAAATCAGAATCAATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
90280704 AGGATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
90280722 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 26 0.38
31 32 0.46
32 11 0.16
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:90280944 original size:54 final size:53
Alignment explanation
Indices: 90280858--90280959 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
90280848 GCTCAGTTAT
* * * *
90280858 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTAGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
* * * *
90280911 CAGATATTTGTGGCATAGCCACCAGAAATAGATAATGTGGCAAAGCCAC
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCAC
90280960 TTAACAGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 6 0.15
54 34 0.85
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACCAGAA
Found at i:90280949 original size:27 final size:27
Alignment explanation
Indices: 90280858--90280959 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
90280848 GCTCAGTTAT
* * * *
90280858 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGAAA
* *
90280885 CAGATATTGTAGCAGAGCCACCAG-AA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
90280911 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAGAAA
* *
90280939 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
90280960 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.78
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:90281146 original size:22 final size:22
Alignment explanation
Indices: 90281118--90281182 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
90281108 GCAAATACGT
*
90281118 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
90281140 TTGGCACAGAGCCAT-ATGCAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
90281162 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
90281183 AAGGCTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:90281666 original size:27 final size:27
Alignment explanation
Indices: 90281609--90281856 Score: 294
Period size: 27 Copynumber: 9.3 Consensus size: 27
90281599 GAGGTAAAAT
* * * *
90281609 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
90281635 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
90281662 AGTAATTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
90281689 AGTAATTCTACCCTACAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
90281716 GATAATTCTA-CCTACAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
90281742 GATAATTCTA-CCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
90281768 GGTAATTCTACCCTAC-GGAGGTATTTC
1 GGTAATTCTACCCTACAGG-GGTATTTC
*
90281795 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
90281822 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
90281849 GGT-ATTCT
1 GGTAATTCT
90281857 GGTAATTTTG
Statistics
Matches: 196, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.01
26 70 0.36
27 123 0.63
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:90281774 original size:106 final size:108
Alignment explanation
Indices: 90281637--90281846 Score: 293
Period size: 106 Copynumber: 2.0 Consensus size: 108
90281627 GGTATCTCGG
* *
90281637 TAATTCCACCCTACAGGGGTATTTTAGTAATTTTACCCTATAAG-GGTATTTCAGTAATTCTACC
1 TAATTCCACCCTACAGGGGTATTTCAGTAATTCTACCCTA-AAGAGGTATTTCAGTAATTCTACC
*
90281701 CTACAGGGGTATTGT-GATAATTCTA-CCTACAGGGGTATTGTGA
65 CTACAAGGGTATT-TCGATAATTCTACCCTACAGGGGTATTGTGA
* * ** *
90281744 TAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCTACGGAGGTATTTCGGTAATTCTACCC
1 TAATTCCACCCTACAGGGGTATTTCAGTAATTCTACCCTAAAGAGGTATTTCAGTAATTCTACCC
*
90281808 TACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
66 TACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATT
90281847 TCGGTATTCT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
105 2 0.02
106 68 0.75
107 21 0.23
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (108 bp):
TAATTCCACCCTACAGGGGTATTTCAGTAATTCTACCCTAAAGAGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTGTGA
Found at i:90281943 original size:27 final size:27
Alignment explanation
Indices: 90281912--90282004 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
90281902 GGGTACTTTG
90281912 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * *
90281939 ATAATTTTACAGGTCGAAGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * **
90281966 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
90281993 GTAATTTTACAA
1 GTAATTTTACAA
90282005 ACTAGGGGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:90282356 original size:54 final size:54
Alignment explanation
Indices: 90281983--90282349 Score: 601
Period size: 54 Copynumber: 6.8 Consensus size: 54
90281973 CACAAATCAG
* *
90281983 GGGTATTTTGGTAATTTTACAAACTAGGGGT-TTTTGATAATTTTATAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
90282036 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * * *
90282090 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
90282144 GGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
90282198 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
90282252 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
90282306 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
90282350 GGTAAACTAA
Statistics
Matches: 290, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
53 31 0.11
54 259 0.89
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:90282358 original size:27 final size:27
Alignment explanation
Indices: 90281957--90282349 Score: 518
Period size: 27 Copynumber: 14.6 Consensus size: 27
90281947 ACAGGTCGAA
** * *
90281957 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
90281984 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
90282011 GGT-TTTTGATAATTTTATAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
90282037 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
90282064 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
90282091 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
** * *
90282118 GGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
**
90282145 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
90282172 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
90282199 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
** *
90282226 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
90282253 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
90282280 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
90282307 GGTATTTTAGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
90282334 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
90282350 GGTAAACTAA
Statistics
Matches: 314, Mismatches: 51, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 23 0.07
27 291 0.93
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:90284645 original size:49 final size:49
Alignment explanation
Indices: 90284553--90284665 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 49
90284543 CAGGGTATAC
* *
90284553 AAGCTAGTGTAAGACCTATCTAGGACATGGCATCAACACCGATAGAT-A
1 AAGCCAGTGTAAGACCTATCTAGGACATGGCATCAACACCGATAAATGA
* * ***
90284601 AGAGCCAGTGTAAGACTTGTCTAGGACATGGCATTGGC-CTCGATAAATGA
1 A-AGCCAGTGTAAGACCTATCTAGGACATGGCATCAACAC-CGATAAATGA
*
90284651 AAGTCAGTGTAAGAC
1 AAGCCAGTGTAAGAC
90284666 ATGTTTGGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.04
49 50 0.93
50 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTATCTAGGACATGGCATCAACACCGATAAATGA
Found at i:90289098 original size:16 final size:16
Alignment explanation
Indices: 90289077--90289111 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90289067 ATTTAGTCAT
90289077 ATAATAAATTATAAA-A
1 ATAATAAATT-TAAATA
90289093 ATAATAAATTTAAATA
1 ATAATAAATTTAAATA
90289109 ATA
1 ATA
90289112 TTATTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATAAATTTAAATA
Found at i:90289178 original size:19 final size:17
Alignment explanation
Indices: 90289150--90289203 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 17
90289140 TATTAATATT
90289150 TTAATAATAAATATTTA
1 TTAATAATAAATATTTA
*
90289167 TTACAATTATAAATATATATA
1 TT--AATAATAAATAT-T-TA
90289188 TTAATAATAAATATTT
1 TTAATAATAAATATTT
90289204 TGTAGTATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 3 0.10
18 1 0.03
19 22 0.71
20 1 0.03
21 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATAATAAATATTTA
Found at i:90298934 original size:30 final size:30
Alignment explanation
Indices: 90298900--90298960 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90298890 TCCTTAACTC
90298900 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90298930 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90298960 A
1 A
90298961 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90313440 original size:43 final size:42
Alignment explanation
Indices: 90313393--90313497 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
90313383 GACGCCACTA
* * * *
90313393 TCCCAGACAGGGTCTTACACGAAATCGGTTAAT-GATGCCAATG
1 TCCCAGACATGGTCTTACACCAAATC--TCAATAAATGCCAATG
* * *
90313436 TCCCAGATATTGTCTTACACCTAATCTCAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACCAAATCTCAATA-AATGCCAATG
90313479 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
90313498 AGTAATCACA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.08
43 47 0.92
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACCAAATCTCAATAAATGCCAATG
Found at i:90315017 original size:16 final size:17
Alignment explanation
Indices: 90314996--90315027 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
90314986 AAGTAATGGC
90314996 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
90315012 TTCATGATCATTATGA
1 TTCATGATCATTATGA
90315028 AAGTGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:90321682 original size:29 final size:29
Alignment explanation
Indices: 90321592--90321751 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
90321582 ACTCGATTTC
* * **
90321592 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
90321621 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
90321649 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
90321679 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
90321708 GCACACTTAGTGCCATATATTTCCAGCAA
1 GCACACTTAGTGCCATATATTTCCAGCAT
90321737 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
90321752 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:90329871 original size:29 final size:29
Alignment explanation
Indices: 90329749--90329876 Score: 116
Period size: 29 Copynumber: 4.4 Consensus size: 29
90329739 ACTCGATTTC
* * **
90329749 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
90329778 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
90329806 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
90329836 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
90329865 GCACACTTAGTG
1 GCACACTTAGTG
90329877 TACCACCCCA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 2 0.03
29 76 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:90331240 original size:43 final size:44
Alignment explanation
Indices: 90331178--90331348 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 44
90331168 GTAACCCGCC
*
90331178 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCA
*
90331222 -ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCA
* * * *
90331269 TC-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCA
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCA
90331312 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 --CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
90331349 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 35 0.33
44 2 0.02
45 3 0.03
46 29 0.27
47 30 0.28
48 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (44 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCA
Found at i:90331294 original size:90 final size:91
Alignment explanation
Indices: 90331185--90331353 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 91
90331175 GCCCATAAGT
* *
90331185 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCA-ATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCACATAAGTGAACTCGGACTCAACTCAACG
90331249 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
*
90331275 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCA--CATAAGTGAACTCGGACTCAACTCAA
90331340 CGAGTTCGGATGCC
64 CGAGTTCGGATGCC
90331354 CAAATATCCG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
90 34 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCACATAAGTGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:90333734 original size:30 final size:30
Alignment explanation
Indices: 90333690--90333778 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
90333680 CAAAGATAAC
90333690 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
90333719 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
90333749 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
90333779 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:90333738 original size:15 final size:15
Alignment explanation
Indices: 90333690--90333769 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
90333680 CAAAGATAAC
*
90333690 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
90333704 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
90333719 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
90333734 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
90333749 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
90333764 AAGAAA
1 AAGAAA
90333770 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:90333778 original size:15 final size:15
Alignment explanation
Indices: 90333701--90333778 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
90333691 AGAAAACCGA
90333701 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
90333716 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
90333730 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
90333745 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
90333761 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
90333776 ATA
1 ATA
90333779 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:90339949 original size:40 final size:40
Alignment explanation
Indices: 90339900--90340107 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
90339890 TCTTCGGAAT
* * *
90339900 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * * *
90339939 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
90339979 TTAGCCCAGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
90340019 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
90340059 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
90340099 TTAGCCCGG
1 TTAGCCCGG
90340108 GTATTATTCA
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.02
40 137 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:90342868 original size:37 final size:37
Alignment explanation
Indices: 90342815--90342900 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
90342805 TTATTACGAA
90342815 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
90342852 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
90342889 GTCTCACCCGGA
1 GTCTTACCCGGA
90342901 ACATTTTCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:90343056 original size:49 final size:49
Alignment explanation
Indices: 90343001--90343267 Score: 400
Period size: 49 Copynumber: 5.5 Consensus size: 49
90342991 TTTTACATTA
*
90343001 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
90343050 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
90343099 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
90343148 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * *
90343195 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCACATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
90343242 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
90343268 GTATATCATA
Statistics
Matches: 206, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
46 2 0.01
47 84 0.41
48 1 0.00
49 119 0.58
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:90348263 original size:45 final size:46
Alignment explanation
Indices: 90348175--90348302 Score: 222
Period size: 45 Copynumber: 2.8 Consensus size: 46
90348165 TGTAACCCGC
* * *
90348175 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90348221 CCATAAGTGAACTCGGACTCAAC-CAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
90348266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90348303 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 42 0.54
46 36 0.46
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:90355977 original size:16 final size:16
Alignment explanation
Indices: 90355956--90355988 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
90355946 TTGTAATACC
90355956 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
90355972 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
90355988 C
1 C
90355989 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:90362755 original size:44 final size:46
Alignment explanation
Indices: 90362655--90362787 Score: 137
Period size: 50 Copynumber: 2.8 Consensus size: 46
90362645 TAAACAACTG
* *
90362655 GAGCTATATCGATCTTGCACACTAAGTGCCAATATATATTTATATAGCCA
1 GAGCTATCTCGATC-TGCACACTAAGTGCCAATATATA--TAGATAG-CA
* *
90362705 GAGCTATCTCAATCATGCACACTAAGTGCCAATATATATAGCT-G-A
1 GAGCTATCTCGATC-TGCACACTAAGTGCCAATATATATAGATAGCA
* *
90362750 -AGCTATCTCGGTCTCGCACACTAAGTGCGAATATATAT
1 GAGCTATCTCGATCT-GCACACTAAGTGCCAATATATAT
90362788 TCGAAATTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 33 0.45
45 1 0.01
47 1 0.01
48 3 0.04
50 35 0.47
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (46 bp):
GAGCTATCTCGATCTGCACACTAAGTGCCAATATATATAGATAGCA
Found at i:90366616 original size:3 final size:3
Alignment explanation
Indices: 90366608--90366649 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
90366598 GGATGTTTTA
*
90366608 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
90366650 TAGTATGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:90368200 original size:46 final size:46
Alignment explanation
Indices: 90368150--90368325 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
90368140 TGGTTGAGCA
90368150 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
90368196 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--TG
* * * *
90368243 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
90368289 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90368326 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:90368308 original size:93 final size:93
Alignment explanation
Indices: 90368149--90368317 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
90368139 ATGGTTGAGC
* *
90368149 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGTTG
90368214 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTCCGAGTTCGTGAGATGTAACTAGGT
* * *
90368242 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG-CTCGAGCTCGTTGAGTT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTC-CGAACTCGTTGAGTT
90368306 GAGTCCGAGTTC
65 GAGTCCGAGTTC
90368318 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGT
Found at i:90371702 original size:61 final size:60
Alignment explanation
Indices: 90371572--90371705 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 60
90371562 TTGAAATGGG
* *
90371572 CCAGATTAATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAGGGGCTATGGC
1 CCAGATTAATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAAGGGCTAAGGC
* * * **
90371632 CTAGATTAATATTGATATGGGCTAAGGCTCAGT-TAACTCTGATTTCTG-AATAGGGCTAAGGC
1 CCAGATTAATACTGATATGGGCT-AGGCCCAGTAT-ACTCTGA-AACTGTAA-AGGGCTAAGGC
90371694 CCAG-TTAATACT
1 CCAGATTAATACT
90371706 ATTTCTGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
60 22 0.36
61 24 0.39
62 15 0.25
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (60 bp):
CCAGATTAATACTGATATGGGCTAGGCCCAGTATACTCTGAAACTGTAAAGGGCTAAGGC
Found at i:90371715 original size:33 final size:34
Alignment explanation
Indices: 90371650--90371731 Score: 123
Period size: 33 Copynumber: 2.4 Consensus size: 34
90371640 ATATTGATAT
*
90371650 GGGCTAAGGCTCAGTTAACTCTGATTTCTGAATA
1 GGGCTAAGGCCCAGTTAACTCTGATTTCTGAATA
90371684 GGGCTAAGGCCCAGTTAA-TACT-ATTTCTGAATA
1 GGGCTAAGGCCCAGTTAACT-CTGATTTCTGAATA
*
90371717 GGGCTTAGGCCCAGT
1 GGGCTAAGGCCCAGT
90371732 AAAGCTTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 26 0.58
34 19 0.42
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (34 bp):
GGGCTAAGGCCCAGTTAACTCTGATTTCTGAATA
Found at i:90378990 original size:14 final size:14
Alignment explanation
Indices: 90378971--90379001 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
90378961 TTCGAGATAA
90378971 AGCCAAATAGTTGT
1 AGCCAAATAGTTGT
90378985 AGCCAAATAGTTGT
1 AGCCAAATAGTTGT
90378999 AGC
1 AGC
90379002 TTCAGAAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (14 bp):
AGCCAAATAGTTGT
Found at i:90385078 original size:40 final size:39
Alignment explanation
Indices: 90384987--90385137 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 39
90384977 ATAACCATGT
* *
90384987 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
90385027 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
90385067 GCACAATTGCCTTCAGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
90385107 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
90385138 TCATTCAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:90385121 original size:80 final size:80
Alignment explanation
Indices: 90384987--90385136 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
90384977 ATAACCATGT
* *
90384987 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCAGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
90385051 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
90385067 GCACAATTGCCTTCAGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCAGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
90385130 CCCGGAT
64 CCCGGAT
90385137 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCAGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:90397077 original size:40 final size:40
Alignment explanation
Indices: 90397020--90397235 Score: 289
Period size: 40 Copynumber: 5.4 Consensus size: 40
90397010 GATGATAACG
* *
90397020 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTCACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATA-TCC
*
90397060 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATA-TCC
*
90397100 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCC
*
90397140 GGGCTAAGTCCCGAAGGCATTTGTGCGA-ACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTC-ACTATATCC
*
90397180 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCA-CTATATCC
* *
90397220 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
90397236 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 15 0.09
40 147 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCC
Found at i:90400468 original size:27 final size:27
Alignment explanation
Indices: 90400436--90400756 Score: 342
Period size: 27 Copynumber: 12.0 Consensus size: 27
90400426 ACCCTTAATT
* * * *
90400436 GGTAAAATGACTATTTTGCACTAATGG
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
90400463 GGTAAAATGATTGTTTTTCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
90400490 TGTAAAATGACTGTTTTGCCCTTATGG
1 GGTAAAATGACTGTTTTGCCCTTATGA
*
90400517 GGTAAAATGACTATTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
*
90400544 GGTAAAATGATTG-TTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGA
* * *
90400570 GGTAAAAAGACTGTTTTGCCTTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
90400597 GGTGAAATGATTG-TTTGCCCTTAT-A
1 GGTAAAATGACTGTTTTGCCCTTATGA
** *
90400622 GGGTAAAATGGTTGTTTTGCCCTTATGG
1 -GGTAAAATGACTGTTTTGCCCTTATGA
* *
90400650 GGTAAAATGACTGTTTTCCCCTTATAA
1 GGTAAAATGACTGTTTTGCCCTTATGA
* *
90400677 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGA
* * * **
90400704 GGTAAAATGACTATTTTGCCTTTTTCT
1 GGTAAAATGACTGTTTTGCCCTTATGA
* * *
90400731 GGTAAGATGACTGTTTTACCCCTATG
1 GGTAAAATGACTGTTTTGCCCTTATG
90400757 TGATGTATGT
Statistics
Matches: 244, Mismatches: 46, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 45 0.18
27 199 0.82
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGA
Found at i:90401135 original size:17 final size:18
Alignment explanation
Indices: 90401068--90401157 Score: 103
Period size: 18 Copynumber: 5.1 Consensus size: 18
90401058 GGAATTGCAT
* *
90401068 ACTGTTCACTGTTACTGC
1 ACTGTTTACTATTACTGC
* *
90401086 ACTGTTTATTATTACTGT
1 ACTGTTTACTATTACTGC
*
90401104 AATGTTTACTATTACTGC
1 ACTGTTTACTATTACTGC
*
90401122 A-T-TATTACTGTTACTGC
1 ACTGT-TTACTATTACTGC
90401139 ACTGTTTACTATTACTGC
1 ACTGTTTACTATTACTGC
90401157 A
1 A
90401158 ATGGGACAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
16 1 0.02
17 14 0.23
18 44 0.73
19 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTATTACTGC
Found at i:90402829 original size:40 final size:40
Alignment explanation
Indices: 90402785--90402860 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
90402775 TAGTGCCTCA
*
90402785 TATAGCCAAAGCTA-TTTCAATTCGCACACTTAGTGCTATT
1 TATAGCCAAAGCTATTTTCAA-ACGCACACTTAGTGCTATT
* *
90402825 TATAGCCGAAGCTATTTTTAAACGCACACTTAGTGC
1 TATAGCCAAAGCTATTTTCAAACGCACACTTAGTGC
90402861 CAAACATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 27 0.84
41 5 0.16
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (40 bp):
TATAGCCAAAGCTATTTTCAAACGCACACTTAGTGCTATT
Found at i:90409598 original size:29 final size:29
Alignment explanation
Indices: 90409565--90409725 Score: 169
Period size: 29 Copynumber: 5.6 Consensus size: 29
90409555 GTGACGAGAT
*
90409565 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
90409594 TGGCACTAAGTGTGTGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
90409623 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
90409652 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* ** * * ***
90409681 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
90409710 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
90409726 GGCTTAAATT
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 113 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:90417410 original size:29 final size:29
Alignment explanation
Indices: 90417377--90417508 Score: 167
Period size: 29 Copynumber: 4.6 Consensus size: 29
90417367 GTGACGAGAT
*
90417377 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
90417406 TGGCACTAAGTGTGCGTGCT-GAAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAA-ATA
*
90417435 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
90417464 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
90417493 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
90417509 AGATCGAAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
28 4 0.04
29 82 0.90
30 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:90419071 original size:26 final size:26
Alignment explanation
Indices: 90418996--90419071 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
90418986 CATATACTAA
* * *
90418996 TACTGGCAGCTTTGCTGCATTACTGT
1 TACTGGCAGCTTTGCTGCGTTATTAT
* * * * *
90419022 TACTAGCAACTTTGCCGAGATATTAT
1 TACTGGCAGCTTTGCTGCGTTATTAT
90419048 TACTGGCAGCTTTGCTGCGTTATT
1 TACTGGCAGCTTTGCTGCGTTATT
90419072 GGTGTGTTGG
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGTTATTAT
Found at i:90426599 original size:27 final size:27
Alignment explanation
Indices: 90426569--90426620 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
90426559 ACCAAAATAA
90426569 CCCTACAGGGTAAAATGACT-ATTTTAC
1 CCCTACAGGGT-AAATGACTGATTTTAC
**
90426596 CCCTTGAGGGTAAATGACTGATTTT
1 CCCTACAGGGTAAATGACTGATTTT
90426621 TGCTATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
CCCTACAGGGTAAATGACTGATTTTAC
Found at i:90428174 original size:28 final size:27
Alignment explanation
Indices: 90428111--90428180 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
90428101 ATAGTGAGTC
*
90428111 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
90428138 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
90428166 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90428181 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:90436087 original size:27 final size:28
Alignment explanation
Indices: 90436043--90436140 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
90436033 ATAGTGAGTC
90436043 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
90436069 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
90436097 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
90436127 CGCACACTTAGTGC
1 CGCACACTTAGTGC
90436141 CATTCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 7 0.11
27 14 0.23
28 22 0.35
30 19 0.31
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:90437793 original size:27 final size:26
Alignment explanation
Indices: 90437763--90437821 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
90437753 TTCCTAGTGG
90437763 CTTTGCCACATATACTGATACTGGCAA
1 CTTTGCCACAT-TACTGATACTGGCAA
** * *
90437790 CTTTGCTGCATTACTGTTACTGGCAG
1 CTTTGCCACATTACTGATACTGGCAA
90437816 CTTTGC
1 CTTTGC
90437822 TGCGAGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
CTTTGCCACATTACTGATACTGGCAA
Found at i:90437810 original size:26 final size:26
Alignment explanation
Indices: 90437775--90437824 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
90437765 TTGCCACATA
90437775 TACTGATACTGGCAACTTTGCTGCAT
1 TACTGATACTGGCAACTTTGCTGCAT
* *
90437801 TACTGTTACTGGCAGCTTTGCTGC
1 TACTGATACTGGCAACTTTGCTGC
90437825 GAGATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TACTGATACTGGCAACTTTGCTGCAT
Found at i:90439905 original size:13 final size:14
Alignment explanation
Indices: 90439879--90439911 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
90439869 ATAAAATATA
90439879 AATTTATATTTAAT
1 AATTTATATTTAAT
90439893 AATTTAT-TTTAAT
1 AATTTATATTTAAT
90439906 ATATTT
1 A-ATTT
90439912 CATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:90443739 original size:30 final size:30
Alignment explanation
Indices: 90443705--90443765 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90443695 TCCTTAACTC
90443705 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90443735 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90443765 A
1 A
90443766 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90446424 original size:21 final size:20
Alignment explanation
Indices: 90446377--90446426 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
90446367 ACTATCATAA
*
90446377 TGCACATAGTTCAAATACCTT
1 TGCACATA-TTCAAATACATT
*
90446398 T-CACATATTCACAATTCATT
1 TGCACATATTCA-AATACATT
90446418 TGCACATAT
1 TGCACATAT
90446427 AGCATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (20 bp):
TGCACATATTCAAATACATT
Found at i:90446764 original size:84 final size:84
Alignment explanation
Indices: 90446620--90446787 Score: 191
Period size: 84 Copynumber: 2.0 Consensus size: 84
90446610 CGGAAAGCTC
* * * *
90446620 ATACAATGCCGACGTCCCAGACATGGGCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAT
1 ATACAATGCCGACATCCCAAACATGGGCTTAAATGTAATCAAATATCAATGCCACTGTCCCAGAT
90446685 AG-GGTCTTACACGAAATCA
66 -GTGGTCTTACACGAAATCA
* * *
90446704 ATACAATGCCGATATCCCAAACTTGGTCTTAAATGTAATATCAAAT-T-AATGCCAAC-GTCCCA
1 ATACAATGCCGACATCCCAAACATGGGCTTAAATGT-A-ATCAAATATCAATGCC-ACTGTCCCA
* *
90446766 GATGTGGTCTTGCAGGAAATCA
63 GATGTGGTCTTACACGAAATCA
90446788 CATATCAGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
83 1 0.01
84 59 0.83
85 4 0.06
86 7 0.10
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (84 bp):
ATACAATGCCGACATCCCAAACATGGGCTTAAATGTAATCAAATATCAATGCCACTGTCCCAGAT
GTGGTCTTACACGAAATCA
Found at i:90456022 original size:80 final size:80
Alignment explanation
Indices: 90455938--90456086 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90455928 TATGGTAACC
* * * *
90455938 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90456002 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90456018 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90456083 CCGG
66 CCGG
90456087 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90456028 original size:40 final size:38
Alignment explanation
Indices: 90455979--90456086 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90455969 ATCACGATTT
*
90455979 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90456019 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90456059 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90456087 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90464141 original size:80 final size:80
Alignment explanation
Indices: 90464057--90464205 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90464047 TATGGTAACC
* * * *
90464057 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90464121 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90464137 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90464202 CCGG
66 CCGG
90464206 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90464147 original size:40 final size:38
Alignment explanation
Indices: 90464098--90464205 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90464088 ATCACGATTT
*
90464098 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90464138 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90464178 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90464206 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90477744 original size:23 final size:23
Alignment explanation
Indices: 90477718--90477761 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
90477708 ATTTGTCTAA
90477718 ATTAAGATT-AAT-TAGGTGAAAGG
1 ATTAA-ATTGAATATAGG-GAAAGG
90477741 ATTAAATTGAATATAGGGAAA
1 ATTAAATTGAATATAGGGAAA
90477762 ATGATGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.16
23 12 0.63
24 4 0.21
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.30
Consensus pattern (23 bp):
ATTAAATTGAATATAGGGAAAGG
Found at i:90477888 original size:14 final size:14
Alignment explanation
Indices: 90477869--90477901 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
90477859 TAATTACATA
90477869 TATTTCTTAATTAT
1 TATTTCTTAATTAT
*
90477883 TATTTCTTACTTAT
1 TATTTCTTAATTAT
90477897 TATTT
1 TATTT
90477902 TAAGTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTCTTAATTAT
Found at i:90481963 original size:24 final size:24
Alignment explanation
Indices: 90481936--90482118 Score: 312
Period size: 24 Copynumber: 7.6 Consensus size: 24
90481926 CTTATTATGT
* * *
90481936 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90481960 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
90481984 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
90482008 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90482032 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
90482056 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90482080 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
90482104 TCGCACACATAGTGC
1 TCGCACACATAGTGC
90482119 ATTTGAGATA
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 151 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:90483601 original size:40 final size:40
Alignment explanation
Indices: 90483546--90483625 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
90483536 CCAAGACTAG
90483546 CCATCTTCTCAATTGGAATTGTAGATGACATAATAATCCT
1 CCATCTTCTCAATTGGAATTGTAGATGACATAATAATCCT
90483586 CCATCTTCTCAATTGGAATTGTAGATGACATAATAATCCT
1 CCATCTTCTCAATTGGAATTGTAGATGACATAATAATCCT
90483626 TCTAAGTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (40 bp):
CCATCTTCTCAATTGGAATTGTAGATGACATAATAATCCT
Found at i:90486392 original size:16 final size:16
Alignment explanation
Indices: 90486371--90486403 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
90486361 TAAAGAAAGA
90486371 TGAAAACCTGATGTGG
1 TGAAAACCTGATGTGG
90486387 TGAAAACCTGATGTGG
1 TGAAAACCTGATGTGG
90486403 T
1 T
90486404 CGATTTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (16 bp):
TGAAAACCTGATGTGG
Found at i:90492447 original size:19 final size:19
Alignment explanation
Indices: 90492423--90492459 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
90492413 AAAGGAAATG
90492423 TAGGGCTTGGTAAGAGCAT
1 TAGGGCTTGGTAAGAGCAT
90492442 TAGGGCTTGGTAAGAGCA
1 TAGGGCTTGGTAAGAGCA
90492460 GTAGTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.38, T:0.24
Consensus pattern (19 bp):
TAGGGCTTGGTAAGAGCAT
Found at i:90496639 original size:49 final size:50
Alignment explanation
Indices: 90496448--90496645 Score: 177
Period size: 50 Copynumber: 4.0 Consensus size: 50
90496438 TACTAAGTGC
* * * * * *
90496448 AGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATTCGTACCTGACAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA-TAGTT
* * * * * * *
90496499 CA-ATCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
* * * * *
90496549 AGGTCACGTTTGTAGTACTAAGTGCAGACTACTA-CCTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGC-GTACCAGATAGTT
*
90496599 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
90496646 CTTCGATTAC
Statistics
Matches: 116, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
49 40 0.34
50 42 0.36
51 33 0.28
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTT
Found at i:90505467 original size:40 final size:40
Alignment explanation
Indices: 90505406--90505627 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
90505396 AACCCAAGTA
* *
90505406 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
90505445 CCTTCGGGTCTTATCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
90505485 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
90505525 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
90505565 CCTTCGGGACTTAGCTCGGATATAGGCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
90505605 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
90505628 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 11 0.07
40 155 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:90513468 original size:40 final size:40
Alignment explanation
Indices: 90513407--90513588 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
90513397 AACCCAAGTA
* *
90513407 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
90513446 CCTTCGGGTCTTATCCCGGATATAGTCAATAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
90513486 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
90513526 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
90513566 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
90513589 CATTCGAATA
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.09
40 113 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:90516131 original size:28 final size:29
Alignment explanation
Indices: 90516091--90516162 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
90516081 AAAATTGTAC
*
90516091 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATGTATAT
90516119 AGCACTAAGTGTGCGAGCTGAATGTATAT
1 AGCACTAAGTGTGCGAGCTGAATGTATAT
90516148 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
90516163 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATGTATAT
Found at i:90523970 original size:28 final size:28
Alignment explanation
Indices: 90523901--90524001 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
90523891 GACAAGATTG
* * * *
90523901 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
90523931 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
90523959 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
90523988 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90524002 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:90523995 original size:29 final size:28
Alignment explanation
Indices: 90523930--90524001 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
90523920 AAAATTGTAC
*
90523930 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
90523958 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
90523987 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
90524002 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:90529336 original size:46 final size:46
Alignment explanation
Indices: 90529281--90529380 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 46
90529271 GGCAATATAT
* *
90529281 ATATTTATATAGCTGGAGCTATCTCAATCACGCACACTAAGTGCCA
1 ATATATATATAGCTGAAGCTATCTCAATCACGCACACTAAGTGCCA
** * * *
90529327 ATATATATATAGCTGAAGCTATCTCGGTCTCGCACACTATGTGCTA
1 ATATATATATAGCTGAAGCTATCTCAATCACGCACACTAAGTGCCA
90529373 ATATATAT
1 ATATATAT
90529381 CCGAAATTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (46 bp):
ATATATATATAGCTGAAGCTATCTCAATCACGCACACTAAGTGCCA
Found at i:90537111 original size:2 final size:2
Alignment explanation
Indices: 90537104--90537133 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90537094 TAGTAAACAC
90537104 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90537134 GTGACAGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90540145 original size:40 final size:40
Alignment explanation
Indices: 90540074--90540281 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
90540064 TAGTCGAAAG
90540074 TATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
90540113 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
90540153 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
* * * *
90540193 TATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TCA
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
* * * * * * *
90540232 CCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCGC
1 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
90540273 TATATCCGG
1 TATATCCGG
90540282 TTAAATCCCG
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 18 0.12
40 131 0.88
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA
Found at i:90548251 original size:40 final size:40
Alignment explanation
Indices: 90548196--90548341 Score: 292
Period size: 40 Copynumber: 3.6 Consensus size: 40
90548186 AACATTGGAA
90548196 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90548236 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90548276 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90548316 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
90548342 TTGTGCAGTC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:90550414 original size:76 final size:79
Alignment explanation
Indices: 90550277--90550491 Score: 256
Period size: 76 Copynumber: 2.7 Consensus size: 79
90550267 CGAATGGTAT
* * * * * *
90550277 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTT
90550342 GTGCGAGTTACCAAA
65 GTGCGAGTTACCAAA
* *
90550357 -CGGG-TAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
*
90550419 TGCGAGTTACTAAA
66 TGCGAGTTACCAAA
* * * * * *
90550433 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAG
90550492 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
76 44 0.38
77 17 0.15
78 7 0.06
79 7 0.06
80 41 0.35
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACCAAA
Found at i:90550419 original size:40 final size:40
Alignment explanation
Indices: 90550277--90550491 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
90550267 CGAATGGTAT
* * * *
90550277 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
90550318 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTAC-CAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
90550357 -CGGG-TAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
90550394 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
90550434 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
90550474 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
90550492 ACAATCGAGC
Statistics
Matches: 151, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
36 25 0.17
37 5 0.03
38 9 0.06
39 5 0.03
40 83 0.55
41 24 0.16
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:90550512 original size:40 final size:40
Alignment explanation
Indices: 90550434--90550517 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
90550424 GTTACTAAAT
* * *
90550434 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
90550474 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
90550514 CCGG
1 CCGG
90550518 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:90550516 original size:80 final size:78
Alignment explanation
Indices: 90550357--90550531 Score: 179
Period size: 80 Copynumber: 2.2 Consensus size: 78
90550347 AGTTACCAAA
* * * * * * * *
90550357 CGGGTAATCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGC
1 CGGGTAATCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGC
*
90550422 GAGTTACTAAATC
66 GAGTCACTAAATC
* * *
90550435 CGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATCGA
1 CGGG-TAA-TCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGA
* *
90550500 GCGAGTCGCTATATC
64 GCGAGTCACTAAATC
* *
90550515 CGGTTAAATTCCGAAGG
1 CGGGT-AATCCCGAAGG
90550532 TACGTGATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
78 4 0.05
79 12 0.15
80 62 0.79
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (78 bp):
CGGGTAATCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGC
GAGTCACTAAATC
Found at i:90558530 original size:78 final size:80
Alignment explanation
Indices: 90558391--90558607 Score: 267
Period size: 78 Copynumber: 2.7 Consensus size: 80
90558381 CGAATGGTAT
* * * * * *
90558391 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTT
90558456 GTGCGAGTTACCAAAA
65 GTGCGAGTTACCAAAA
* *
90558472 CCGGG-TAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
* *
90558535 TGCGAGTTACTAAAT
66 TGCGAGTTACCAAAA
* * * * * *
90558550 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAG
90558608 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
78 49 0.42
79 20 0.17
80 44 0.37
81 5 0.04
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACCAAAA
Found at i:90558535 original size:40 final size:40
Alignment explanation
Indices: 90558391--90558607 Score: 260
Period size: 40 Copynumber: 5.5 Consensus size: 40
90558381 CGAATGGTAT
* * * *
90558391 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
90558432 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
90558472 CCGGG-TAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
90558510 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
90558550 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
90558590 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
90558608 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 35 0.22
39 5 0.03
40 92 0.59
41 24 0.15
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:90558628 original size:40 final size:40
Alignment explanation
Indices: 90558550--90558633 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
90558540 GTTACTAAAT
* * *
90558550 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
90558590 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
90558630 CCGG
1 CCGG
90558634 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:90558632 original size:80 final size:78
Alignment explanation
Indices: 90558458--90558647 Score: 182
Period size: 80 Copynumber: 2.4 Consensus size: 78
90558448 AGGCATTTGT
* * * * * * *
90558458 GCGAGTTACCAAAACCGGGTAATCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCC
1 GCGAGTCACTAAATCCGGGTAATCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCC
* * * *
90558523 CGAAGGCATTTGT
66 CGAAGACAATCGA
* * * *
90558536 GCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGT
1 GCGAGTCACTAAATCCGGG-TAA-TCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGT
90558601 CCCGAAGACAATCGA
64 CCCGAAGACAATCGA
* * * *
90558616 GCGAGTCGCTATATCCGGTTAAATTCCGAAGG
1 GCGAGTCACTAAATCCGGGT-AATCCCGAAGG
90558648 TACGTGATTC
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
78 17 0.19
79 12 0.13
80 62 0.68
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (78 bp):
GCGAGTCACTAAATCCGGGTAATCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCC
CGAAGACAATCGA
Found at i:90564967 original size:40 final size:39
Alignment explanation
Indices: 90564893--90565117 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 39
90564883 AACCCAAGTA
* *
90564893 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
90564932 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
90564972 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
* *
90565015 CCTTCGGGACTTGGCTCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
90565055 CCTTCGGGACTTAGCTCGGATATAGGAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACT-AGCACAAATG
90565095 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
90565118 CATCCGAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 17
0.85 0.07 0.09
Matches are distributed among these distances:
39 13 0.08
40 113 0.69
41 3 0.02
43 34 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:90565013 original size:83 final size:82
Alignment explanation
Indices: 90564893--90565117 Score: 325
Period size: 83 Copynumber: 2.8 Consensus size: 82
90564883 AACCCAAGTA
* * *
90564893 CCTTCGGGATTTAG-CCGGATATAGCAACT-CGC-ACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGACAAATGCCTTCGGGACTTAGCCCGGATAT
90564955 AGTCACTAGCACAAATG
66 AGTCACTAGCACAAATG
* * *
90564972 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGTACAAATGCCTTCGGGACTTGGCTCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCG-ACAAATGCCTTCGGGACTTAGCCCGGATA
90565037 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
* * *
90565055 CCTTCGGGACTTAGCTCGGATATAGGAACT-CAC-ACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGACAAATGCCTTCGGGACTTAGCCCGGATAT
90565118 CATCCGAATA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 42 0.32
81 2 0.02
82 2 0.02
83 71 0.55
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTACTCGACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:90572312 original size:99 final size:94
Alignment explanation
Indices: 90572152--90572335 Score: 262
Period size: 99 Copynumber: 1.9 Consensus size: 94
90572142 ACATTGAGAC
90572152 GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATG
1 GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATG
90572217 TCTGGGACATAGCATCGGCACAAATATGT
66 TCTGGGACATAGCATCGGCACAAATATGT
* * **
90572246 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCT-CGATTTCGATAGTCAGTGTAAG
1 GAGAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCAG-CTACGAGAT-G-T-GTCAGTGTAAG
*
90572310 ACCATGTCTGGGACATGGCATCGGCA
60 ACCATGTCTGGGACATAGCATCGGCA
90572336 TTATACCCTA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
94 16 0.20
95 14 0.18
96 9 0.11
97 3 0.04
98 1 0.01
99 36 0.46
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGTCAGTGTAAGACCATG
TCTGGGACATAGCATCGGCACAAATATGT
Found at i:90572322 original size:49 final size:50
Alignment explanation
Indices: 90572065--90572335 Score: 170
Period size: 49 Copynumber: 5.7 Consensus size: 50
90572055 TTTGTGTGCT
* * *
90572065 AGTGTAAGA-CATGTCTGGGACAT-GCAGCGGC-CACATTAT-T-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-AATATGTGAGAGTC
* * * *
90572111 AGTGTAAGACCATGTCTGTGCCATGGCATC-G-AC--AT-TGAGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGA-GAG-TC
* * * *
90572158 TAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCTAC-GAGATGT----GTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAAATATGTGAGAGTC
*
90572203 AGTGTAAGACCATGTCTGGGACATAGCATCGGCACAAATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTC
* * ** *
90572252 TAGTGTAAGACCATGTTTGGGACATGGCGTCGGC-CTCGAT-T-TCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AAATATGT-GAGAGTC
90572302 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
90572336 TTATACCCTA
Statistics
Matches: 176, Mismatches: 24, Indels: 46
0.72 0.10 0.19
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 17 0.10
46 30 0.17
47 27 0.15
48 14 0.08
49 40 0.23
50 35 0.20
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAATATGTGAGAGTC
Found at i:90574892 original size:39 final size:39
Alignment explanation
Indices: 90574781--90574973 Score: 260
Period size: 39 Copynumber: 4.9 Consensus size: 39
90574771 GTTCAAAACA
* * * * * *
90574781 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
90574821 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* *
90574861 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
90574900 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
* * *
90574939 CCTTCAGGCTTAGCCTGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
90574974 TTCATACACA
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:90577380 original size:56 final size:56
Alignment explanation
Indices: 90577289--90577422 Score: 232
Period size: 56 Copynumber: 2.4 Consensus size: 56
90577279 CATGGCATCA
* * *
90577289 ATATATGTGTGCGAGTAAGACCGCGTTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
90577345 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
*
90577401 ATATATGTGTGTGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
90577423 CTACATAGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAACACGTTGGCATCGATATGTGACTCCG
Found at i:90580908 original size:40 final size:40
Alignment explanation
Indices: 90580864--90580946 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
90580854 AGGCTTGTGC
*
90580864 ACCTGTAGCTTATGCTATTTACGCTCGTGAGGAGATTTCA
1 ACCTGTAGCTTATGCTATTTACGCTCGTGAGCAGATTTCA
*
90580904 ACCTGTAGCTTATGCTATTTGCGCTCGTGAGCAGATTTCA
1 ACCTGTAGCTTATGCTATTTACGCTCGTGAGCAGATTTCA
90580944 ACC
1 ACC
90580947 CCAGATGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (40 bp):
ACCTGTAGCTTATGCTATTTACGCTCGTGAGCAGATTTCA
Found at i:90584808 original size:56 final size:56
Alignment explanation
Indices: 90584717--90584850 Score: 205
Period size: 56 Copynumber: 2.4 Consensus size: 56
90584707 CATGGCATCA
* * * *
90584717 ATATATGTGTGCGAGTAAGACCGCGTTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACATTTAACACGTTGGCATCGATATGTGACTCCG
* *
90584773 ATATATGTGTGCAAGTAAGACTACATTTAACACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACATTTAACACGTTGGCATCGATATGTGACTCCG
*
90584829 ATATATGTGTGTGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
90584851 CTACATAGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACATTTAACACGTTGGCATCGATATGTGACTCCG
Found at i:90584868 original size:56 final size:56
Alignment explanation
Indices: 90584748--90584877 Score: 174
Period size: 56 Copynumber: 2.3 Consensus size: 56
90584738 CGCGTTTAAT
* **
90584748 ACGTTGGCATCGATATGTGACTTCGATATATGTGTGCAAGTAAGACTACATTTAAC
1 ACGTTGGCATCGATATGTGACTCCGATATATGTGTGCAAGTAAGACTACATAGAAC
** *
90584804 ACGTTGGCATCGATATGTGACTCCGATATATGTGTGTGAGTAAGACCCTACATAGGAC
1 ACGTTGGCATCGATATGTGACTCCGATATATGTGTGCAAGTAAGA--CTACATAGAAC
90584862 A-G-TGGCATCGATATGT
1 ACGTTGGCATCGATATGT
90584878 CATTATATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
56 56 0.85
57 1 0.02
58 9 0.14
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (56 bp):
ACGTTGGCATCGATATGTGACTCCGATATATGTGTGCAAGTAAGACTACATAGAAC
Found at i:90594571 original size:47 final size:47
Alignment explanation
Indices: 90594507--90594629 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
90594497 ATCCATAAGT
* * * *
90594507 GAACTCGAACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATCCCTAGTTACATCTAAC
*
90594554 GAACTCGGACTCAACTCAACGAGTTCGGATCCCTAGTTACATCTAAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATCCCTAGTTACATCTAAC
90594601 GAACTCGGACTCAACTCAACGAGTTCAGA
1 GAACTCGGACTCAACTCAACGAGTTCAGA
90594630 CGTTCGCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATCCCTAGTTACATCTAAC
Found at i:90609270 original size:2 final size:2
Alignment explanation
Indices: 90609263--90609301 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
90609253 GAGACTAGTC
90609263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90609302 CATGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90610567 original size:63 final size:64
Alignment explanation
Indices: 90610387--90610569 Score: 194
Period size: 63 Copynumber: 2.8 Consensus size: 64
90610377 ATATAGTTCG
* * * * *
90610387 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCCCAT
90610449 A
64 A
* * * *
90610450 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCA
1 GCTCTCTTGTCTACATGGTG---TACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCA
90610515 TA
63 TA
* *
90610517 GCTCTC-TGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT
90610570 CATAATGTCT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 46 0.46
66 36 0.36
67 14 0.14
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCATA
Found at i:90611078 original size:32 final size:32
Alignment explanation
Indices: 90611038--90611099 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
90611028 AAATTACAGC
90611038 ATTATTGTTGTATTATTATCATACCAACTTGT
1 ATTATTGTTGTATTATTATCATACCAACTTGT
90611070 ATTATTGTTGTATTATTATCATACCAACTT
1 ATTATTGTTGTATTATTATCATACCAACTT
90611100 ACATACTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (32 bp):
ATTATTGTTGTATTATTATCATACCAACTTGT
Found at i:90611368 original size:30 final size:30
Alignment explanation
Indices: 90611334--90611394 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90611324 TCCTTAACTC
90611334 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90611364 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90611394 A
1 A
90611395 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90612956 original size:46 final size:45
Alignment explanation
Indices: 90612823--90612978 Score: 170
Period size: 46 Copynumber: 3.4 Consensus size: 45
90612813 GTTATTCGTT
* * *
90612823 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATG-AA
* * * * *
90612869 GCCAGTATAAGACCATGTCTAGGACATGGCATCGGCATCGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA-A
*
90612917 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AA
90612963 GCTAGTGTAAGACATG
1 GCTAGTGTAAGACATG
90612979 CCATTCATCA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
46 42 0.46
47 27 0.30
48 21 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAA
Found at i:90615846 original size:30 final size:30
Alignment explanation
Indices: 90615812--90615879 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
90615802 AAAATATTTT
*
90615812 TAAAAATAAAAATTATAATT-GAAAAAATTC
1 TAAAAATAAAAA-TATAATTAGAAAAAAATC
* * *
90615842 TAAAAATTCAAAATATATTTATAAAAAAATC
1 TAAAAA-TAAAAATATAATTAGAAAAAAATC
90615873 TAAAAAT
1 TAAAAAT
90615880 TTTACAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (30 bp):
TAAAAATAAAAATATAATTAGAAAAAAATC
Found at i:90617445 original size:46 final size:46
Alignment explanation
Indices: 90617395--90617570 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90617385 TGGTTGAGCA
90617395 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90617441 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90617486 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90617534 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90617571 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90617551 original size:93 final size:93
Alignment explanation
Indices: 90617392--90617563 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90617382 GGATGGTTGA
* *
90617392 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90617457 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90617485 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90617550 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
90617564 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90624984 original size:46 final size:46
Alignment explanation
Indices: 90624934--90625109 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90624924 TGGTTGAGCA
90624934 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90624980 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90625025 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90625073 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90625110 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90625090 original size:93 final size:93
Alignment explanation
Indices: 90624931--90625102 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90624921 GGATGGTTGA
* *
90624931 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90624996 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90625024 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90625089 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
90625103 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90628831 original size:20 final size:21
Alignment explanation
Indices: 90628802--90628853 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
90628792 AACTAATGGC
*
90628802 ATATATACATAATATATATAT
1 ATATACACATAATATATATAT
90628823 A-ATACACATAATATATATAT
1 ATATACACATAATATATATAT
*
90628843 ATATATACATA
1 ATATACACATA
90628854 TTAGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATACACATAATATATATAT
Found at i:90629389 original size:11 final size:12
Alignment explanation
Indices: 90629373--90629409 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
90629363 AGAAAAAAAA
90629373 GGAAGAGAG-AG
1 GGAAGAGAGAAG
90629384 GGAAGAGAGAAG
1 GGAAGAGAGAAG
90629396 GG-AGAGAGAAG
1 GGAAGAGAGAAG
90629407 GGA
1 GGA
90629410 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:90629410 original size:11 final size:11
Alignment explanation
Indices: 90629371--90629420 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
90629361 AAAGAAAAAA
*
90629371 AAGGAAGAGAG
1 AAGGGAGAGAG
90629382 -AGGGAAGAGAG
1 AAGGG-AGAGAG
90629393 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
90629404 AAGGGAGGGGG
1 AAGGGAGAGAG
90629415 AAGGGA
1 AAGGGA
90629421 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:90629715 original size:13 final size:14
Alignment explanation
Indices: 90629683--90629715 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
90629673 TTTTTGGTTT
90629683 TTTTTTGCTGGAAA
1 TTTTTTGCTGGAAA
90629697 TTTTTT-CTGGAAA
1 TTTTTTGCTGGAAA
90629710 TTTTTT
1 TTTTTT
90629716 TTTGGTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (14 bp):
TTTTTTGCTGGAAA
Found at i:90629716 original size:14 final size:15
Alignment explanation
Indices: 90629682--90629716 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
90629672 TTTTTTGGTT
90629682 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
90629697 -TTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
90629710 TTTTTTT
1 TTTTTTT
90629717 TTGGTGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:90629725 original size:33 final size:31
Alignment explanation
Indices: 90629680--90629752 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 31
90629670 TTTTTTTTGG
90629680 TTTTTTTTTGCTGGAAATTTTTT-CTGGAAAT
1 TTTTTTTTTGCTGG-AATTTTTTGCTGGAAAT
**
90629711 TTTTTTTTGGTGCTGGAATTTTTTGCTGGATTT
1 TTTTTTTT--TGCTGGAATTTTTTGCTGGAAAT
90629744 TTTTTTTTT
1 TTTTTTTTT
90629753 TTGCTTCCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 9 0.24
32 8 0.22
33 20 0.54
ACGTcount: A:0.12, C:0.05, G:0.18, T:0.64
Consensus pattern (31 bp):
TTTTTTTTTGCTGGAATTTTTTGCTGGAAAT
Done.